STAARpipelineSummary v0.9.7.1 #78
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| on: [push, pull_request] | |
| name: R-CMD-check | |
| jobs: | |
| R-CMD-check: | |
| runs-on: macOS-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - name: Install macOS system dependencies | |
| if: runner.os == 'macOS' | |
| run: | | |
| brew install imagemagick@6 | |
| brew install libgit2 | |
| curl -O https://mac.r-project.org/tools/gfortran-12.0.1-20220312-is-darwin20-arm64.tar.xz | |
| sudo tar fxz gfortran-12.0.1-20220312-is-darwin20-arm64.tar.xz -C / | |
| export PATH=$PATH:/opt/R/arm64/gfortran/bin | |
| - uses: actions/checkout@v4 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: 4.2.3 | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: | | |
| bioc::GENESIS | |
| bioc::GenomicFeatures | |
| bioc::TxDb.Hsapiens.UCSC.hg38.knownGene | |
| github::xihaoli/STAAR | |
| github::xihaoli/MultiSTAAR | |
| github::zilinli1988/SCANG | |
| github::xihaoli/STAARpipeline | |
| any::rcmdcheck | |
| needs: | | |
| website | |
| coverage | |
| install-pandoc: true | |
| - name: Check | |
| run: rcmdcheck::rcmdcheck(args = "--no-manual", error_on = "error") | |
| shell: Rscript {0} |